Biodiversity extinction thresholds are modulated by matrix type

Biodiversity extinction thresholds are abrupt declines in biological diversity that occur with habitat loss, associated with a decline in habitat connectivity. Matrix quality should influence the location of thresholds along habitat loss gradients through its effects on connectivity; however these relationships have seldom been explored empirically. Using field data from 23 independent 1254 ha landscapes in the Brazilian Atlantic Forest, we evaluated how tropical avian biodiversity responds to native forest loss within habitat patches embedded either in homogeneous pasture matrix context (with a high proportion of cattle pastures), and heterogeneous coffee matrix context (with high abundance of sun coffee plantations). We considered taxonomic, functional, and phylogenetic diversity, and tested if matrix type and choice of diversity metric influenced the location of biodiversity thresholds along the forest cover gradient. We found that matrix type postponed the abrupt loss of taxonomic diversity, from a threshold of 35% of forest cover in homogeneous pasture matrix to 19% in heterogeneous coffee matrix. Phylogenetic diversity responded similarly, with thresholds at 30 and 24% in homogeneous‐pasture and heterogeneous‐coffee matrices, respectively, but no relationship with forest cover was detected when corrected for richness correlation. Despite the absence of a threshold for functional diversity in either matrix types, a strong decline below 20% of habitat amount was detected. Finally, below 20% native habitat loss, all diversity indices demonstrated abrupt declines, indicating that even higher‐quality matrices cannot postpone diversity loss below this critical threshold. These results highlight that taxonomic diversity is a more sensitive index of biodiversity loss in fragmented landscapes, which may be used as a benchmark to prevent subsequent functional and phylogenetic losses. Furthermore, increasing matrix quality appears an efficient conservation strategy to maintain higher biodiversity levels in fragmented landscapes over a larger range of habitat loss.     

Clustered or scattered? The impact of habitat quality clustering on establishment and early spread

The match between the environmental conditions of an introduction area and the preferences of an introduced species is the first prerequisite for establishment. Yet, introduction areas are usually landscapes, i.e. heterogeneous sets of habitats that are more or less favourable to the introduced species. Because individuals are able to disperse after their introduction, the quality of the habitat surrounding the introduction site is as critical to the persistence of introduced populations as the quality of the introduction site itself. Moreover, demographic mechanisms such as Allee effects or dispersal mortality can hamper dispersal and affect spread across the landscape, in interaction with the spatial distribution of favourable habitat patches. In this study, we investigate the impact of the spatial distribution of heterogeneous quality habitats on establishment and early spread. First, we simulated introductions in one‐dimensional landscapes for different dispersal rates and either dispersal mortality or Allee effects. The landscapes differed by the distribution of favourable and less favourable habitats, which were either clustered into few large aggregates of the same quality or scattered into multiple smaller ones. Second, we tested the predictions of simulations by performing experimental introductions of hymenopteran parasitoids (Trichogramma chilonis) in ‘clustered’ and ‘scattered’ microcosm landscapes. Results highlighted two impacts of the clustering of favourable habitat: by decreasing the risks of dispersal from the introduction site to unfavourable habitat early during the invasion, it increased establishment success. However, by increasing the distance between favourable habitat patches, it also hindered the subsequent spread of introduced species over larger areas.     

Estimating plant migration rates under habitat loss and fragmentation

Changes in the global environment are modifying the geographical locations of habitats suitable for plant growth. The capacity of plants to migrate to sites of suitable environmental quality will strongly influence future distributions of plant diversity. However, it is not well understood how rates of plant migration are influenced by the habitat loss and habitat fragmentation that characterise contemporary landscapes. In this study we develop a model that can predict migration rates in both intact landscapes (potential migration rate) and in fragmented landscapes (realised migration rates). Migration rates in fragmented landscapes might be slower for many reasons. In this study we focus on two, non‐exclusive reasons. First, the processes that move seeds may break down in fragmented landscapes causing seeds to be dispersed shorter distances. Second, in fragmented landscapes some proportion of seeds will not be deposited in habitats suitable for recruitment. We describe the breakdown of dispersal processes as a competing risk between the factors influencing dispersal in intact landscapes and the factors that may disrupt dispersal processes in fragmented landscapes. We show how the parameters that influence dispersal in fragmented landscapes can be estimated, and how these estimates can be used to forecast migration rates using an integrodifference equation (IDE). The forecasts of the IDE described the effects of reduced dispersal distances adequately. However, the IDE produced biased estimates of the effects of a reduction in plant habitat on migration rates. Model analyses showed that, although we can expect realised migration rates to be lower than potential migration rates, we can also expect the sensitivity of migration rate to habitat loss to vary. In addition, simulations showed that the qualitative nature of the responses of migration rate to habitat loss were variable – some model species responded non‐linearly to habitat loss, others responded linearly. While our method provides guidelines for empirical data collection and model parameterisation, we recognise that obtaining these data will be challenging.     

Matrix type and landscape attributes modulate avian taxonomic and functional spillover across habitat boundaries in the Brazilian Atlantic Forest

Land use intensification drives biodiversity loss worldwide. In heterogeneous landscape mosaics, both overall forest area and anthropogenic matrix structure induce changes in biological communities in primary habitat remnants. However, community changes via cross‐habitat spillover processes along forest–matrix interfaces remain poorly understood. Moreover, information on how landscape attributes affect spillover processes across habitat boundaries are embryonic. Here, we quantify avian α‐ and β‐diversity (as proxies of spillover rates) across two dominant types of forest–matrix interfaces (forest–pasture and forest–eucalyptus plantation) within the Atlantic Forest biodiversity hotspot in southeast Brazil. We also assess the effects of anthropogenic matrix type and landscape attributes (forest cover, edge density and land‐use diversity) on bird taxonomic and functional β‐diversity across forest–matrix boundaries. Alpha taxonomic richness was higher in forest edges than within both matrix types, but between matrix types, it was higher in pastures than in eucalyptus plantations. Although significantly higher in forests edges than in the adjacent eucalyptus, bird functional richness did not differ between forest edges and adjacent pastures. Community changes (β‐diversity) related to species and functional replacements (turnover component) were higher across forest–pasture boundaries, whereas changes related to species and functional loss (nested component) were higher across forest–eucalyptus boundaries. Forest edges adjacent to eucalyptus had significant higher species and functional replacements than forest edges adjacent to pastures. Forest cover negatively influenced functional β‐diversity across both forest–pasture and forest–eucalyptus interfaces. We show the importance of matrix type and the structure of surrounding landscapes (mainly forest cover) on rates of bird assemblage spillover across forest‐matrix boundaries, which has profound implications to biological fluxes, ecosystem functioning and land‐use management in human‐modified landscapes.     

Anthropogenic landscape change promotes asymmetric dispersal and limits regional patch occupancy in a spatially structured bird population

1. Local extinctions in habitat patches and asymmetric dispersal between patches are key processes structuring animal populations in heterogeneous environments. Effective landscape conservation requires an understanding of how habitat loss and fragmentation influence demographic processes within populations and movement between populations. 2. We used patch occupancy surveys and molecular data for a rainforest bird, the logrunner (Orthonyx temminckii), to determine (i) the effects of landscape change and patch structure on local extinction; (ii) the asymmetry of emigration and immigration rates; (iii) the relative influence of local and between-population landscapes on asymmetric emigration and immigration; and (iv) the relative contributions of habitat loss and habitat fragmentation to asymmetric emigration and immigration. 3. Whether or not a patch was occupied by logrunners was primarily determined by the isolation of that patch. After controlling for patch isolation, patch occupancy declined in landscapes experiencing high levels of rainforest loss over the last 100 years. Habitat loss and fragmentation over the last century was more important than the current pattern of patch isolation alone, which suggested that immigration from neighbouring patches was unable to prevent local extinction in highly modified landscapes. 4. We discovered that dispersal between logrunner populations is highly asymmetric. Emigration rates were 39% lower when local landscapes were fragmented, but emigration was not limited by the structure of the between-population landscapes. In contrast, immigration was 37% greater when local landscapes were fragmented and was lower when the between-population landscapes were fragmented. Rainforest fragmentation influenced asymmetric dispersal to a greater extent than did rainforest loss, and a 60% reduction in mean patch area was capable of switching a population from being a net exporter to a net importer of dispersing logrunners. 5. The synergistic effects of landscape change on species occurrence and asymmetric dispersal have important implications for conservation. Conservation measures that maintain large patch sizes in the landscape may promote asymmetric dispersal from intact to fragmented landscapes and allow rainforest bird populations to persist in fragmented and degraded landscapes. These sink populations could form the kernel of source populations given sufficient habitat restoration. However, the success of this rescue effect will depend on the quality of the between-population landscapes.     

Temporal and spatial resource use by female three-toed sloths and their young in an agricultural landscape in Costa Rica

The information on ecological behavior of wild sloths is very scarce. In this study we determined the home ranges and resources used by three adult female three-toed sloths (Bradypus variegatus) and their four young in an agricultural matrix of cacao (Theobroma cacao), pasture, riparian forests and living fencerows in Costa Rica. Births occurred during November-December and the young became independent at five to seven months of age. Initially, mothers remained fixed in one or a few trees, but expanded their use of resources as young sloths became independent from them. Mothers initially guided the young to preferred food and cover resources, but they gradually left their young in small nucleus areas and colonized new areas for themselves. Home range sizes for young sloths (up to seven months of age) varied between 0.04-0.6 hectares, while home range sizes for mothers varied from 0.04-25.0 hectares. During the maternal care period, 22 tree species were used, with the most common being Cecropia obtusifolia (30.9%), Coussapoa villosa (25.6%), Nectandra salicifolia (12.1%), Pterocarpus officinalis (5.8%) and Samanea saman (5.4%). However, young sloths used only 20 tree species, with the most common being C. villosa (18.4%), S. saman (18.5%) and N. salicifolia (16.7%). The cacao agroforest was used only by mother sloths and never by their young following separation. However, in the riparian forest, both mother sloths and young used the tree species. A total of 28 tree species were used by the mother sloth; including the food species: C. obtusifolia, C. villosa, N. salicifolia and P. officinalis. However, the young used 18 trees species in this habitat with N. salicifolia and S. saman most commonly used, although they rested and fed during the day in C. obtusifolia, C. villosa and O. sinnuata. The cacao agroforest with adjacent riparian forests and fencerows provides an important habitat type that links the smaller secondary forests and other patches.     

Applying a continua landscape approach to evaluate plant response to fragmentation: Primula vulgaris in the Cantabrian mountains

Question: Continua landscape approaches conceptualize the effects of habitat fragmentation on the biota by considering fragmented landscapes as continuous gradients, departing from the view of habitat as either suitable (fragment) or unsuitable (matrix). They also consider the ecological gradients or the ‘Umwelt’ (species‐specific perception of the landscape) to represent the processes that ultimately limit organisms' ability to colonize and persist within habitat remnants. Are these approaches suitable for evaluating the response of plant species to fragmentation? Location: Fragmented mid‐elevation temperate forests, Cantabrian range, Spain. Methods: The presence, abundance and demographic structure of populations of the perennial herb Primula vulgaris were sampled across a continuous extent of 100 ha, subdivided into 400 50 m × 50 m sampling units. These variables were related to forest availability, forest subdivision and edge density, topography and the spatial clumpiness of populations (a measure of plant dispersal constraints and, hence, a major surrogate of plant Umwelt). Results: Fragmentation processes, especially habitat loss, negatively affect P. vulgaris, with a stronger effect on presence than on abundance and demography. Despite the importance of habitat availability, P. vulgaris does not occupy all potentially suitable forest habitat, mostly owing to dispersal constraints. A positive effect of slope on plant presence also suggests some effect of habitat quality in determining establishment and occupancy of forest landscape. Conclusions: Within‐habitat dispersal constraints are as important as forest fragmentation in determining the landscape‐scale distribution of P. vulgaris. By assessing the relative role of the diverse fragmentation processes, and of the species' landscape perception, a continua landscape approach proves to be a valuable tool for predicting plant response to landscape change.     

The effect of habitat on the range expansion of a native and an introduced bird species

Aim Range expansion across a heterogeneous landscape may depend on the habitat selected and used by the expanding species. If habitat selection influences range expansion then localities colonized by a species should contain a greater proportion of favoured habitat (and less non‐habitat) than other nearby localities not colonized. White‐winged doves (Zenaida asiatica) and Eurasian collared doves (Streptopelia decaocto) are two bird species that provide an excellent opportunity to test this hypothesis, because the geographic ranges of both species have been expanding in North America for more than two decades. Location Continental USA. Methods We used distribution data from the North American Breeding Bird Survey to test whether the landscapes occupied by each species contained a greater proportion of favoured habitat (urban land, grassland/pasture, shrub land and cropland) and a lower proportion of non‐habitat (forest land) than landscapes where doves were not found. We tested each species separately in each of three broad expansion areas, namely East, Central and West. We also compared rates of spatial spread between expansion areas and between the two species. Results As predicted, both species tended to occupy landscapes with greater proportions of urban land, shrub land and cropland but with less forest land compared with landscapes without doves, in all three expansion areas. Contrary to prediction, occupied landscapes tended to have slightly less grassland/pasture than unoccupied landscapes. Rates of spread differed between the two species and among expansion areas. Main conclusions Range expansion and the extent to which a species fills or saturates its range are influenced by the habitat ecology of the expanding species. Species colonize localities based on the availability of suitable habitat. However, the role of habitat in a species’ range expansion does depend somewhat on the greater geographical setting. Over large regional and geographical scales, range expansion (rate of spread and saturation) may proceed unevenly, suggesting that range expansion is a very dynamic and context‐specific process.     

Multi‐scale effects of habitat structure and landscape context on a vertebrate with limited dispersal ability (the brown‐throated sloth,Bradypus variegatus)

As human population, food consumption, and demand for forest products continue to rise over the next century, the pressures of land‐use change on biodiversity are projected to intensify. In tropical regions, countryside habitats that retain abundant tree cover and structurally complex canopies may complement protected areas by providing suitable habitats and landscape connectivity for a significant portion of the native biota. Species with low dispersal capabilities are among the most at risk of extinction as a consequence of land‐use change. We assessed how the spatial distribution of the brown‐throated sloth (Bradypus variegatus), a model species for a vertebrate with limited dispersal ability, is shaped by differences in habitat structure and landscape patterns of countryside habitats in north‐central Costa Rica using a multi‐scale framework. We quantified the influence of local habitat characteristics and landscape context on sloth occurrence using mixed‐effects logistic regression models. We recorded 27 sloths within countryside habitats and found that both local and landscape factors significantly influenced their spatial distribution. Locally, sloths favored structurally complex habitats, with greater canopy cover and variation in tree height and basal area. At the landscape scale, sloths demonstrated a preference for habitats with high proportions of forest and nearby large tracts of forest. Although mixed‐use areas and tree plantations are not substitutes for protected forests, our results suggest they provide important supplemental habitats for sloths. To promote the conservation and long‐term viability of sloth populations in the tropical countryside, we recommend that land managers retain structurally complex vegetation and large patches of native habitat.     

The conservation value of cacao agroforestry for bird functional diversity in tropical agricultural landscapes

Cacao agroforestry have been considered as biodiversity‐friendly farming practices by maintaining habitats for a high diversity of species in tropical landscapes. However, little information is available to evaluate whether this agrosystem can maintain functional diversity, given that agricultural changes can affect the functional components, but not the taxonomic one (e.g., species richness). Thus, considering functional traits improve the understanding of the agricultural impacts on biodiversity. Here, we measured functional diversity (functional richness‐FD, functional evenness‐FEve, and functional divergence‐Rao) and taxonomic diversity (species richness and Simpson index) to evaluate changes of bird diversity in cacao agroforestry in comparison with nearby mature forests (old‐growth forests) in the Brazilian Atlantic Forest. We used data from two landscapes with constraining areas of mature forest (49% Una and 4.8% Ilhéus) and cacao agroforestry cover (6% and 82%, respectively). To remove any bias of species richness and to evaluate assembly processes (functional overdispersion or clustering), all functional indices were adjusted using null models. Our analyses considered the entire community, as well as separately for forest specialists, habitat generalists, and birds that contribute to seed dispersal (frugivores/granivores) or invertebrate removal (insectivores). Our findings showed that small cacao agroforestry in the forested landscape sustains functional diversity (FD and FEve) as diverse as nearby forests when considering the entire community, forest specialist, and habitat generalists. However, we observed declines for frugivores/granivores and insectivores (FD and Rao). These responses of bird communities differed from those observed by taxonomic diversity, suggesting that even species‐rich communities in agroforestry may capture lower functional diversity. Furthermore, communities in both landscapes showed either functional clustering or neutral processes as the main driver of functional assembly. Functional clustering may indicate that local conditions and resources were changed or lost, while neutral assemblies may reveal high functional redundancy at the landscape scale. In Ilhéus, the neutral assembly predominance suggests an effect of functional homogenization between habitats. Thus, the conservation value of cacao agroforestry to harbor species‐rich communities and ecosystem functions relies on smallholder production with reduced farm management in a forested landscape. Finally, we emphasize that seed dispersers and insectivores should be the priority conservation targets in cacao systems.     

Condition-dependent dispersal of a patchily distributed riparian ground beetle in response to disturbance

In common with many habitat elements of riverine landscapes, exposed riverine sediments (ERS) are highly disturbed, naturally patchy and regularly distributed, whose specialists are strongly adapted to flood disturbance and loss of habitat due to succession. Investigations of dispersal in ERS habitats therefore provide an important contrast to the unnaturally fragmented, stable systems usually studied. The present investigation analysed the three interdependent stages of dispersal: (1) emigration, (2) inter-patch movement and (3) immigration of a common ERS specialised beetle, Bembidion atrocaeruleum (Stephens 1828) (Coleoptera, Carabidae), in a relatively unmodified section of river, using mark–resight methods. Dispersal was correlated with estimates of local population size and density, water level and patch quality in order to test for condition-dependent dispersal cues. Flood inundation of habitat was found to increase strongly the overall rate of dispersal, and the rate of emigration was significantly higher from patches that were heavily trampled by cattle. Strongly declining numbers of dispersers with distance suggested low dispersal rates during periods of low water level. Dispersal in response to habitat degradation by cattle trampling would likely lead to a higher overall population fitness than a random dispersal strategy. Dispersal distances were probably adapted to the underlying habitat landscape distribution, high-flow dispersal cues and ready means of long-distance dispersal through hydrochory. Species whose dispersal is adapted to the natural habitat distribution of riverine landscapes are likely to be strongly negatively affected by reduced flood frequency and intensity and habitat fragmentation through flow regulation or channelisation.Electronic Supplementary Material Supplementary material is available to authorised users in the online version of this article at .     

Pollen dispersal and genetic structure of the tropical tree Dipteryx panamensis in a fragmented Costa Rican landscape

In the face of widespread deforestation, the conservation of rainforest trees relies increasingly on their ability to maintain reproductive processes in fragmented landscapes. Here, we analysed nine microsatellite loci for 218 adults and 325 progeny of the tree Dipteryx panamensis in Costa Rica. Pollen dispersal distances, genetic diversity, genetic structure and spatial autocorrelation were determined for populations in four habitats: continuous forest, forest fragments, pastures adjacent to fragments and isolated pastures. We predicted longer but less frequent pollen movements among increasingly isolated trees. This pattern would lead to lower outcrossing rates for pasture trees, as well as lower genetic diversity and increased structure and spatial autocorrelation among their progeny. Results generally followed these expectations, with the shortest pollen dispersal among continuous forest trees (240 m), moderate distances for fragment (343 m) and adjacent pasture (317 m) populations, and distances of up to 2.3 km in isolated pastures (mean: 557 m). Variance around pollen dispersal estimates also increased with fragmentation, suggesting altered pollination conditions. Outcrossing rates were lower for pasture trees and we found greater spatial autocorrelation and genetic structure among their progeny, as well as a trend towards lower heterozygosity. Paternal reproductive dominance, the pollen contributions from individual fathers, did not vary among habitats, but we did document asymmetric pollen flow between pasture and adjacent fragment populations. We conclude that long-distance pollen dispersal helps maintain gene flow for D. panamensis in this fragmented landscape, but pasture and isolated pasture populations are still at risk of long-term genetic erosion.     

Habitat‐dependent population regulation in an irrupting population of long‐nosed bandicoots (Perameles nasuta)

We used isodars to analyse habitat‐dependent population regulation by long‐nosed bandicoots Perameles nasuta during an irruption and subsequent population crash in three habitats (heath, woodland and forest) at Booderee National Park, south‐eastern Australia. Specifically, we aimed to see whether patterns of habitat‐dependent population regulation matched a priori estimates of quantitative and qualitative differences between habitats. We also tested if habitat preference changed between the increasing and decreasing phase of the irruption as predicted by the reciprocating dispersal theory. Quantitative differences in habitat quality were indexed by the relative abundance of the main food of long‐nosed bandicoots (terrestrial invertebrates), while qualitative differences were indexed by the availability of refuge from predation (vegetation understorey density). One index of fitness, body weight, was highest in forest, and lowest in heath, suggesting an ideal despotic model of habitat selection. Over the entire course of the irruption, there was density‐dependent habitat selection with forest and woodland both quantitatively superior to heath. This reflected the overall abundance of invertebrates with highest abundance in woodland and forest and less in heath. Isodar analysis also revealed that although forest was quantitatively better than heath and equivalent to woodland it was qualitatively poorer than either habitat. Heath had a higher density of understorey than woodland and woodland having a higher density of understorey than forest giving crossover population regulation. When the increasing and declining phase of the irruption were analysed separately, no habitat was quantitatively superior to any other during either phase. The lack of switching in preference between habitats from the increasing to the declining phase of the irruption and the virtual absence of any dispersal by adults, does not support the reciprocating dispersal hypothesis.     

Sex ratio evolution when fitness and dispersal vary

In a heterogeneous environment, when the fitness of males and females are differently influenced by habitat quality, habitat-dependent sex ratios may evolve to favor the production of the sex that benefits more (or loses less) from the local habitat. Similarly, sex-biased dispersal favors the evolution of habitat-dependent sex ratios. The present study documents the convergence stable sex ratios expected in the presence of sex-specific fitness gains when dispersal is partial, sex-biased or costly, using a simple model with patches of two qualities. Results show that partial dispersal reduces the sex ratio bias expected with sex-specific fitness gains. The direction of the sex ratio bias can be reversed by sex-biased dispersal or the existence of sex-specific dispersal costs, provided that fitness gains for the two sexes are not too different. The reversal of the sex ratio bias is more readily observed when sex-specific dispersal rates are opposite and extreme. Both dispersal and fitness gains, especially when they are sex-specific, should thus be considered when making predictions about sex ratio evolution in a heterogeneous environment.     

Effects of Culling on Mesopredator Population Dynamics

Anthropogenic changes in land use and the extirpation of apex predators have facilitated explosive growth of mesopredator populations. Consequently, many species have been subjected to extensive control throughout portions of their range due to their integral role as generalist predators and reservoirs of zoonotic disease. Yet, few studies have monitored the effects of landscape composition or configuration on the demographic or behavioral response of mesopredators to population manipulation. During 2007 we removed 382 raccoons (Procyon lotor) from 30 forest patches throughout a fragmented agricultural ecosystem to test hypotheses regarding the effects of habitat isolation on population recovery and role of range expansion and dispersal in patch colonization of mesopredators in heterogeneous landscapes. Patches were allowed to recolonize naturally and demographic restructuring of patches was monitored from 2008–2010 using mark-recapture. An additional 25 control patches were monitored as a baseline measure of demography. After 3 years only 40% of experimental patches had returned to pre-removal densities. This stagnant recovery was driven by low colonization rates of females, resulting in little to no within-patch recruitment. Colonizing raccoons were predominantly young males, suggesting that dispersal, rather than range expansion, was the primary mechanism driving population recovery. Contrary to our prediction, neither landscape connectivity nor measured local habitat attributes influenced colonization rates, likely due to the high dispersal capability of raccoons and limited role of range expansion in patch colonization. Although culling is commonly used to control local populations of many mesopredators, we demonstrate that such practices create severe disruptions in population demography that may be counterproductive to disease management in fragmented landscapes due to an influx of dispersing males into depopulated areas. However, given the slow repopulation rates observed in our study, localized depopulation may be effective at reducing negative ecological impacts of mesopredators in fragmented landscapes at limited spatial and temporal scales.     

Spatiotemporally explicit demographic modelling supports a joint effect of historical barriers to dispersal and contemporary landscape composition on structuring genomic variation in a red‐listed grasshopper

Inferring the processes underlying spatial patterns of genomic variation is fundamental to understand how organisms interact with landscape heterogeneity and to identify the factors determining species distributional shifts. Here, we use genomic data (restriction site‐associated DNA sequencing) to test biologically informed models representing historical and contemporary demographic scenarios of population connectivity for the Iberian cross‐backed grasshopper Dociostaurus hispanicus, a species with a narrow distribution that currently forms highly fragmented populations. All models incorporated biological aspects of the focal taxon that could hypothetically impact its geographical patterns of genomic variation, including (a) spatial configuration of impassable barriers to dispersal defined by topographic landscapes not occupied by the species; (b) distributional shifts resulting from the interaction between the species bioclimatic envelope and Pleistocene glacial cycles; and (c) contemporary distribution of suitable habitats after extensive land clearing for agriculture. Spatiotemporally explicit simulations under different scenarios considering these aspects and statistical evaluation of competing models within an Approximate Bayesian Computation framework supported spatial configuration of topographic barriers to dispersal and human‐driven habitat fragmentation as the main factors explaining the geographical distribution of genomic variation in the species, with no apparent impact of hypothetical distributional shifts linked to Pleistocene climatic oscillations. Collectively, this study supports that both historical (i.e., topographic barriers) and contemporary (i.e., anthropogenic habitat fragmentation) aspects of landscape composition have shaped major axes of genomic variation in the studied species and emphasizes the potential of model‐based approaches to gain insights into the temporal scale at which different processes impact the demography of natural populations.     

Landscape size affects the relative importance of habitat amount,habitat fragmentation,and matrix quality on forest birds

It is important to understand the relative effects of landscape habitat loss, habitat fragmentation, and matrix quality on biodiversity, so that potential management options can be appropriately ranked. However, their effects and relative importance may change with the size of the landscape considered because the multiple (and potentially conflicting) ecological processes that are influenced by landscape structure occur at different spatial scales (e.g. dispersal, predation, foraging). We estimated the relative effects of habitat loss, habitat fragmentation, and matrix quality (measured as the amount of forest, the proportion of forest area contained in large core forests, and the density of roads respectively) on fragmentation‐sensitive forest birds in southern Ontario, Canada using a range of landscape sizes (0.8–310 km²). We used three complementary statistical approaches to estimate relative effects of these correlated landscape factors – 1) multiple regression, 2) information theoretic (AIC) estimates of the most parsimonious model, and 3) multi‐model inference to average effects across all supported models. We controlled for spatial autocorrelation, local habitat, roadside sampling bias, time of day, season, habitat heterogeneity, and the interaction between the effects of habitat amount and fragmentation. We found that relative effects of habitat amount and fragmentation were scale dependent; habitat amount had a consistently positive effect that was consistent over more than two orders of magnitude in landscape area (~1–300 km²). In contrast, the effects of habitat fragmentation depended on the size of the landscape considered. Indeed, for veery Catharus fuscescens, habitat fragmentation had positive effects at one scale and negative effects at another. The effects of matrix quality were generally weak and changed little with scale. For the number of fragmentation sensitive species and the presence of veery, habitat amount was most important in large landscapes and habitat fragmentation in small landscapes but for the presence of ovenbird Seiurus aurocapilla, habitat amount was most important at all scales.     

Guild‐specific shifts in visitation rates of frugivores with habitat loss and plant invasion

Habitat loss and plant invasions are two major drivers of global change in subtropical and tropical ecosystems. Both lead to a loss of biodiversity and alter species interactions, which may imperil vital ecosystem processes such as seed dispersal by frugivores. Reponses of frugivores to disturbance are often linked to their specialization on certain habitats or resources. Yet, it is poorly understood how habitat loss and plant invasion structure interactions between plants and different habitat or feeding guilds. Here we investigated whether visitation rates of frugivores change guild‐specifically with increasing habitat loss and invasion level in a heterogeneous subtropical landscape. In 756 h of observations, we recorded 1446 plant–frugivore interactions among 18 plant species and 42 avian frugivore species. Visitation rates of forest specialists decreased with increasing habitat loss, but not with changes in invasion level. In contrast forest generalists and forest visitors were unaffected by either driver. Similarly, obligate frugivores that overall showed a generalized fruit choice were unaffected by habitat loss and changes in invasion level. Contrary, visitation rates of specialized partial and opportunistic frugivores decreased with higher invasion level. Importantly, the negative effect of plant invasion on partial frugivores was more pronounced as habitat loss in the same study site increased, indicating a synergistic effect of the two drivers. The implications of our study are twofold: first, frugivores respond guild‐specifically to habitat loss and plant invasion. Thereby forest dependency is mainly related to habitat loss, and degree of frugivory mainly related to plant invasion. Forest generalists and obligate frugivores in turn may play a key‐role for forest regeneration in disturbed forest landscapes. Second, particularly frugivores with a specialized fruit choice may be threatened by synergistic effects between habitat loss and plant invasion.     

How can maladaptive habitat choice generate source‐sink population dynamics?

Several theoretical models have been proposed to describe population dynamics in a spatially heterogeneous environment. The source-sink model is among the most popular. Diffendorfer recently summarized its assumptions and predictions. Given the model reviewed, he argued that source-sink population dynamics arises if dispersal is somehow constrained. I offer an additional mechanism by suggesting that source-sink population dynamics can be generated by anthropogenic changes in landscapes that occur so quickly that organisms no longer make optimal habitat selection decisions. Individuals select the same habitats as their ancestors but these decisions no longer provide high fitness because of human-induced changes in habitat quality, such as increased rates of predation and/or parasitism. Provided that some of the habitats selected are turned by human-induced changes into sink habitats, source-sink population dynamics can emerge.     

Gene flow and functional connectivity in the natterjack toad

Functional connectivity is a key factor for the persistence of many specialist species in fragmented landscapes. However, connectivity estimates have rarely been validated by the observation of dispersal movements. In this study, we estimated functional connectivity of a real landscape by modelling dispersal for the endangered natterjack toad (Bufo calamita) using cost distance. Cost distance allows the evaluation of 'effective distances', which are distances corrected for the costs involved in moving between habitat patches in spatially explicit landscapes. We parameterized cost-distance models using the results of our previous experimental investigation of natterjack's movement behaviour. These model predictions (connectivity estimates from the GIS study) were then confronted to genetic-based dispersal rates between natterjack populations in the same landscape using Mantel tests. Dispersal rates between the populations were inferred from variation at six microsatellite loci. Based on these results, we conclude that matrix structure has a strong effect on dispersal rates. Moreover, we found that cost distances generated by habitat preferences explained dispersal rates better than did the Euclidian distances, or the connectivity estimate based on patch-specific resistances (patch viscosity). This study is a clear example of how landscape genetics can validate operational functional connectivity estimates.